6ZWV

Cryo-EM structure of SARS-CoV-2 Spike Proteins on intact virions: 3 Closed RBDs

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0016020	cellular_component	membrane
A	0019031	cellular_component	viral envelope
A	0019064	biological_process	fusion of virus membrane with host plasma membrane
A	0039654	biological_process	fusion of virus membrane with host endosome membrane
A	0046813	biological_process	receptor-mediated virion attachment to host cell
A	0055036	cellular_component	virion membrane
A	0075509	biological_process	endocytosis involved in viral entry into host cell
B	0016020	cellular_component	membrane
B	0019031	cellular_component	viral envelope
B	0019064	biological_process	fusion of virus membrane with host plasma membrane
B	0039654	biological_process	fusion of virus membrane with host endosome membrane
B	0046813	biological_process	receptor-mediated virion attachment to host cell
B	0055036	cellular_component	virion membrane
B	0075509	biological_process	endocytosis involved in viral entry into host cell
C	0016020	cellular_component	membrane
C	0019031	cellular_component	viral envelope
C	0019064	biological_process	fusion of virus membrane with host plasma membrane
C	0039654	biological_process	fusion of virus membrane with host endosome membrane
C	0046813	biological_process	receptor-mediated virion attachment to host cell
C	0055036	cellular_component	virion membrane
C	0075509	biological_process	endocytosis involved in viral entry into host cell

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	3597
Details	TOPO_DOM: Extracellular => ECO:0000255|HAMAP-Rule:MF_04099

Chain	Residue	Details
A	GLN14-PRO1213
B	GLN14-PRO1213
C	GLN14-PRO1213

---

site_id	SWS_FT_FI2
Number of Residues	60
Details	TRANSMEM: Helical => ECO:0000255|HAMAP-Rule:MF_04099

Chain	Residue	Details
A	TRP1214-LEU1234
B	TRP1214-LEU1234
C	TRP1214-LEU1234

---

site_id	SWS_FT_FI3
Number of Residues	114
Details	TOPO_DOM: Cytoplasmic => ECO:0000255|HAMAP-Rule:MF_04099

Chain	Residue	Details
A	CYS1235-THR1273
B	CYS1235-THR1273
C	CYS1235-THR1273

---

site_id	SWS_FT_FI4
Number of Residues	3
Details	SITE: Cleavage; by host furin => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32142651, ECO:0000269|PubMed:32362314, ECO:0000269|PubMed:32703818, ECO:0000269|PubMed:34159616

Chain	Residue	Details
A	ARG685
B	ARG685
C	ARG685

---

site_id	SWS_FT_FI5
Number of Residues	3
Details	SITE: Cleavage; by host TMPRSS2 or CTSL => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32703818, ECO:0000269|PubMed:34159616

Chain	Residue	Details
A	ARG815
B	ARG815
C	ARG815

---

site_id	SWS_FT_FI6
Number of Residues	15
Details	LIPID: S-palmitoyl cysteine; by host ZDHHC20 => ECO:0000269|PubMed:34599882

Chain	Residue	Details
A	CYS1235
B	CYS1243
C	CYS1235
C	CYS1236
C	CYS1240
C	CYS1241
C	CYS1243
A	CYS1236
A	CYS1240
A	CYS1241
A	CYS1243
B	CYS1235
B	CYS1236
B	CYS1240
B	CYS1241

---

site_id	SWS_FT_FI7
Number of Residues	15
Details	LIPID: S-palmitoyl cysteine; by host ZDHHC20; partial => ECO:0000269|PubMed:34599882

Chain	Residue	Details
A	CYS1247
B	CYS1254
C	CYS1247
C	CYS1248
C	CYS1250
C	CYS1253
C	CYS1254
A	CYS1248
A	CYS1250
A	CYS1253
A	CYS1254
B	CYS1247
B	CYS1248
B	CYS1250
B	CYS1253

---

site_id	SWS_FT_FI8
Number of Residues	9
Details	CARBOHYD: N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942

Chain	Residue	Details
A	ASN17
A	ASN1158
A	ASN1173
B	ASN17
B	ASN1158
B	ASN1173
C	ASN17
C	ASN1158
C	ASN1173

---

site_id	SWS_FT_FI9
Number of Residues	15
Details	CARBOHYD: N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942

Chain	Residue	Details
A	ASN61
B	ASN1074
C	ASN61
C	ASN122
C	ASN717
C	ASN801
C	ASN1074
A	ASN122
A	ASN717
A	ASN801
A	ASN1074
B	ASN61
B	ASN122
B	ASN717
B	ASN801

---

site_id	SWS_FT_FI10
Number of Residues	9
Details	CARBOHYD: N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942

Chain	Residue	Details
A	ASN74
A	ASN149
A	ASN1194
B	ASN74
B	ASN149
B	ASN1194
C	ASN74
C	ASN149
C	ASN1194

---

site_id	SWS_FT_FI11
Number of Residues	21
Details	CARBOHYD: N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942

Chain	Residue	Details
A	ASN165
B	ASN331
B	ASN343
B	ASN616
B	ASN657
B	ASN1098
C	ASN165
C	ASN282
C	ASN331
C	ASN343
C	ASN616
A	ASN282
C	ASN657
C	ASN1098
A	ASN331
A	ASN343
A	ASN616
A	ASN657
A	ASN1098
B	ASN165
B	ASN282

---

site_id	SWS_FT_FI12
Number of Residues	6
Details	CARBOHYD: N-linked (GlcNAc...) (high mannose) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942

Chain	Residue	Details
A	ASN234
A	ASN709
B	ASN234
B	ASN709
C	ASN234
C	ASN709

---

site_id	SWS_FT_FI13
Number of Residues	3
Details	CARBOHYD: O-linked (GalNAc) threonine; by host => ECO:0000269|PubMed:32363391

Chain	Residue	Details
A	THR323
B	THR323
C	THR323

---

site_id	SWS_FT_FI14
Number of Residues	3
Details	CARBOHYD: O-linked (HexNAc...) serine; by host => ECO:0000269|PubMed:32363391

Chain	Residue	Details
A	SER325
B	SER325
C	SER325

---

site_id	SWS_FT_FI15
Number of Residues	3
Details	CARBOHYD: N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942

Chain	Residue	Details
A	ASN603
B	ASN603
C	ASN603

---

site_id	SWS_FT_FI16
Number of Residues	6
Details	CARBOHYD: O-linked (GlcNAc...) threonine; by host GALNT1 => ECO:0000269|PubMed:34732583

Chain	Residue	Details
A	THR676
A	THR678
B	THR676
B	THR678
C	THR676
C	THR678

---

site_id	SWS_FT_FI17
Number of Residues	3
Details	CARBOHYD: N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942

Chain	Residue	Details
A	ASN1134
B	ASN1134
C	ASN1134

---